Sequence
atgc intronic sequence ATGC exonic sequence...aaacagcttctaattgcataattgataatatctatctatttcttttcttttcatcaatgatcaagtgtaattcttatcacgtgtcctggtttcatcccagATAACTTGATCTTGACAGAAGATCATAAAACTGTTAAACTTGCTGATTTCGGTCTAGCCAGAGAAGAGTCCTTAACAGAGATGATGACTGCTGAGACAGG
Basic information
species | Glycine max |
transcript | GLYMA16G07490.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G07490.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g38080.1 (Oryza sativa), 3'ss of exon 4
aaacagcttctaattgcataattgataat--atctatctatttcttttcttttcatcaatgatcaagtgtaattcttatcacgtgtcctggtttcatcccagATAACTTGATCTTGACAGAAGATCATAAAACTGTTAAACTTGCTGATTTCGGTCTAGCCAGAGAAGAGTCCTTAACAGAGATGATGACTGCTGAGACAGG
| | | | | |||| || ||| | | | | || | | || | | | | || | |||||| | | |||| |||||| | ||||| | ||| || | ||| || || |||| ||| | ||| |||| ||||||||| | |||||||||||||||||||| ||||||||
tttcttttcagagctatttttttgaaaaaaaatcaagccagaaatatttgtacaaataaggtttatcatgagccattgttt--tgtccttctgtacgtacagAGAACTTGCTGTTGACCGCAGACCAGAGAACAGTCAAGCTTGTTGACCTTGGTTTAGCAAGAGAAGAGACATTAACAGAGATGATGACTGCAGAGACAGG
upper sequence: GLYMA16G07490.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g09290.t01 (Vitis vinifera), 3'ss of exon 3
aaacagcttctaattgcataattgataatatctatctatttcttttcttttca-tcaatgatcaagtgtaattcttatcacgtgtcctggtt-tcatcccagATAACTTGATCTTGACAGAAGATCATAAAACTGTTAAACTTGCTGATTTCGGTCTAGCCAGAGAAGAGTCCTTAACAGAGATGATGACTGCTGAGACAGG
||| || || | || ||| | | | || || | | | |||| || || || | | || | | | || | | |||| ||||| |||||||| | ||| || ||||| |||||||| | ||||| ||| |||| || |||||||| | |||||||||||||||||||| |||||
--acatgtttaaaccagttcatagatggtttttcactcttacatattgattcaaccagggaagaaattacctatccatgatgggcttccattatttttgcagAGAACTTAATCTTGACTGCAGACCACAAAACAGTTAAACTGGTGGATTTTGGTTTAGCAAGGGAAGAGTCACTGACAGAGATGATGACTGCTGAAACAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttcatcaatgatcaagtgtaattcttatcacgtgtcctggtttcatcccagATAACTTGATCTTGACAGAAGATCATAAAACTGTTAAACTTGCTGATTTCGGTCTAGCCAGAGAAGAGTCCTTAACAGAGATGATGACTGCTGAGACAGG
tttcatccc CT-rich tract
taattcttat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacagcttctaattgcataattgataatatctatctatttcttttcttttcatcaatgatcaagtgtaattcttatcacgtgtcctggtttcatcccagATAACTTGATCTTGACAGAAGATCATAAAACTGTTAAACTTGCTGATTTCGGTCTAGCCAGAGAAGAGTCCTTAACAGAGATGATGACTGCTGAGACAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- -cagcttc
- - - - - - - tgcataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtcctg